ArticleNucleic acids research2010
Thermodynamics of RNA duplexes modified with unlocked nucleic acid nucleotides.
Article in Nucleic acids research, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.
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16 citing papers in PubMed.
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- Towards improved anticancer properties of the G-quadruplex-forming T40231 aptamer through increased flexibility of nucleoside residues.Scientific reports · 2025Article
- Characterization and optimization of azo dyes degrading microbes isolated from textile effluent.Scientific reports · 2025Article
- Thermodynamic control of mismatch discrimination for extensive splicing regulation of PKM pre-mRNA.RNA (New York, N.Y.) · 2025Article
- Acyclic (RNA (New York, N.Y.) · 2023Article
- Replacing salt correction factors with optimized RNA nearest-neighbour enthalpy and entropy parameters.Chemical physics · 2019Article
- A systematic study on the influence of thermodynamic asymmetry of 5'-ends of siRNA duplexes in relation to their silencing potency.Scientific reports · 2019Article
- Article
- Watson-Crick-like pairs in CCUG repeats: evidence for tautomeric shifts or protonation.RNA (New York, N.Y.) · 2016Article
- Modulation of the RNA Interference Activity Using Central Mismatched siRNAs and Acyclic Threoninol Nucleic Acids (aTNA) Units.Molecules (Basel, Switzerland) · 2015Article
- RNA polymerase II transcriptional fidelity control and its functional interplay with DNA modifications.Critical reviews in biochemistry and molecular biology · 2015Review
- Molecular basis of transcriptional fidelity and DNA lesion-induced transcriptional mutagenesis.DNA repair · 2014Review
- Dissecting the chemical interactions and substrate structural signatures governing RNA polymerase II trigger loop closure by synthetic nucleic acid analogues.Nucleic acids research · 2014Article
- A chemical perspective on transcriptional fidelity: dominant contributions of sugar integrity revealed by unlocked nucleic acids.Angewandte Chemie (International ed. in English) · 2013Article
- 5' Unlocked Nucleic Acid Modification Improves siRNA Targeting.Molecular therapy. Nucleic acids · 2013Article
- Improved thrombin binding aptamer by incorporation of a single unlocked nucleic acid monomer.Nucleic acids research · 2011Article
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2 authors.
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Abstract
Thermodynamics provides insights into the influence of modified nucleotide residues on stability of nucleic acids and is crucial for designing duplexes with given properties. In this article, we introduce detailed thermodynamic analysis of RNA duplexes modified with unlocked nucleic acid (UNA) nucleotide residues. We investigate UNA single substitutions as well as model mismatch and dangling end effects. UNA residues placed in a central position makes RNA duplex structure less favourable by 4.0-6.6 kcal/mol. Slight destabilization, by ∼0.5-1.5 kcal/mol, is observed for 5'- or 3'-terminal UNA residues. Furthermore, thermodynamic effects caused by UNA residues are extremely additive with ΔG°(37) conformity up to 98%. Direct mismatches involving UNA residues decrease the thermodynamic stability less than unmodified mismatches in RNA duplexes. Additionally, the presence of UNA residues adjacent to unpaired RNA residues reduces mismatch discrimination. Thermodynamic analysis of UNA 5'- and 3'-dangling ends revealed that stacking interactions of UNA residues are always less favourable than that of RNA residues. Finally, circular dichroism spectra imply no changes in overall A-form structure of UNA-RNA/RNA duplexes relative to the unmodified RNA duplexes.
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